Contacts of the strand formed by residues 164 - 177 (chain C) in PDB entry 2MPR
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with VAL 164 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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150C GLY* 4.1 20.2 - - - -
151C GLY 4.3 0.2 - - - +
152C SER 3.1 6.5 - - - +
153C TYR* 3.5 28.0 - - + -
161C TYR* 3.3 28.7 - - + +
163C GLU* 1.3 77.7 - - - +
165C LYS* 1.3 68.6 + - - +
202C TYR* 4.1 3.3 + - - -
255C SER* 5.3 1.6 - - - +
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Residues in contact with LYS 165 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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19A GLU* 3.1 30.2 + - - -
150C GLY* 3.0 26.9 - - - +
152C SER* 2.8 20.4 + - - +
164C VAL* 1.3 76.9 - - - +
166C ASP* 1.3 80.5 + - - +
199C THR* 2.8 32.3 + - + +
202C TYR* 3.5 38.6 - - + +
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Residues in contact with ASP 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19A GLU* 4.6 1.0 - - - +
71A GLN* 4.6 15.0 + - - +
147C THR* 3.7 15.3 - - + +
148C GLU 3.3 12.1 - - - +
149C ALA* 3.3 8.1 - - - +
150C GLY* 2.8 20.2 + - - -
152C SER* 4.1 1.1 + - - -
165C LYS* 1.3 104.3 + - - +
167C THR* 1.3 61.5 + - - +
168C ALA 3.9 1.6 + - - -
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Residues in contact with THR 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147C THR* 3.4 3.3 - - - -
148C GLU* 2.9 37.9 + - - -
150C GLY 2.7 21.5 + - - -
151C GLY* 3.3 9.2 - - - -
152C SER* 2.8 23.8 + - - +
166C ASP* 1.3 72.5 - - - +
168C ALA* 1.3 62.8 + - - +
169C ASN* 3.1 10.0 + - - +
196C ALA* 3.8 28.7 - - + -
197C ASN 4.5 2.0 - - - +
198C THR* 4.3 5.6 - - + +
204C LEU* 3.8 10.8 - - + -
250C SER* 3.9 13.0 - - - +
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Residues in contact with ALA 168 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19A GLU* 3.6 38.2 + - + +
145C ARG* 4.0 18.8 - - - +
146C SER 3.7 6.1 - - - -
147C THR* 4.2 5.8 - - + +
166C ASP 3.9 2.8 + - - -
167C THR* 1.3 74.8 - - - +
169C ASN* 1.3 60.0 + - - +
170C ASP* 4.1 0.7 - - - +
196C ALA* 3.5 3.1 - - - -
197C ASN* 2.8 41.8 + - + +
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Residues in contact with ASN 169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144C THR 4.1 0.2 - - - +
145C ARG* 3.6 4.6 - - - +
146C SER* 2.8 39.9 + - - +
148C GLU* 2.9 29.5 + - - +
167C THR* 3.1 16.4 + - - +
168C ALA* 1.3 74.3 + - - +
170C ASP* 1.3 63.7 + - - +
171C VAL* 4.7 2.3 - - - +
195C ARG 3.3 5.8 - - - +
196C ALA* 3.8 8.1 - - - -
247C ALA* 3.1 31.9 + - + +
249C GLY* 2.8 30.1 + - - -
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Residues in contact with ASP 170 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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11A ILE* 5.1 0.2 - - - +
13A TRP* 2.7 28.7 + - + -
144C THR 3.8 4.7 - - - +
145C ARG* 2.8 34.8 + - - +
168C ALA* 5.0 0.2 - - - +
169C ASN* 1.3 74.1 + - - +
171C VAL* 1.3 62.5 + - - +
172C PHE* 3.6 26.0 - - + -
193C TYR 3.9 0.3 - - - +
194C GLY* 3.1 4.7 - - - -
195C ARG* 3.0 38.1 + - + +
197C ASN* 3.1 25.2 + - - +
247C ALA* 4.5 0.3 - - - +
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Residues in contact with VAL 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122C ILE* 4.4 6.5 - - + -
143C ALA* 3.1 27.7 - - - +
144C THR* 3.1 26.1 + - - +
145C ARG* 5.8 0.7 - - - -
146C SER* 5.6 2.0 - - - +
169C ASN 4.7 3.8 - - - +
170C ASP* 1.3 79.2 - - - +
172C PHE* 1.3 67.9 + - - +
173C ASP* 4.0 2.2 - - + +
192C ASP* 3.6 23.6 - - + +
193C TYR 3.5 8.3 - - - +
194C GLY* 4.6 0.7 - - - -
239C MET* 4.5 2.0 - - + -
245C GLY 3.3 27.6 - - - +
246C GLN* 4.0 7.6 - - + -
247C ALA* 3.9 19.5 - - + +
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Residues in contact with PHE 172 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13A TRP* 4.7 12.6 - + - -
142C ALA 3.6 3.8 - - - +
143C ALA* 4.2 18.2 - - + -
170C ASP* 3.6 36.6 - - + -
171C VAL* 1.3 76.2 - - - +
173C ASP* 1.3 60.5 + - - +
174C VAL* 5.2 3.4 - - + +
191C VAL 3.8 1.4 - - - +
192C ASP* 3.4 4.5 - - - -
193C TYR* 2.9 62.5 + + + +
195C ARG* 4.6 14.8 - - - -
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Residues in contact with ASP 173 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107C TYR* 3.8 8.7 + - - -
120C TRP* 4.0 1.7 + - - -
122C ILE* 3.6 20.4 - - + +
140C SER 4.6 0.9 - - - +
141C LEU* 3.4 6.1 - - - +
142C ALA* 2.8 38.9 + - + +
171C VAL* 4.9 1.1 - - + -
172C PHE* 1.3 71.6 - - - +
174C VAL* 1.3 66.7 + - - +
175C ARG* 2.8 52.4 + - - -
191C VAL 3.6 3.4 - - - +
192C ASP* 2.6 28.5 - - - +
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Residues in contact with VAL 174 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139C LEU* 3.9 16.4 - - + -
140C SER 3.4 3.1 - - - -
141C LEU* 3.7 26.5 - - + -
172C PHE* 5.2 3.6 - - + +
173C ASP* 1.3 81.5 - - - +
175C ARG* 1.3 67.0 + - - +
189C LEU 4.0 0.2 - - - +
190C GLY* 3.2 4.2 - - - -
191C VAL* 2.9 43.6 + - + +
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Residues in contact with ARG 175 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107C TYR* 3.8 18.2 + - - -
108C GLN* 2.8 54.9 + - - +
110C HIS* 3.9 2.4 + - - -
120C TRP* 3.4 61.9 + - + +
122C ILE* 3.9 10.1 - - - +
138C LYS 3.5 0.7 - - - +
139C LEU* 3.3 10.2 - - - +
140C SER* 2.9 39.8 + - - +
173C ASP* 2.8 51.3 + - - +
174C VAL* 1.3 78.7 - - - +
176C LEU* 1.3 60.3 + - - +
177C ALA* 4.1 1.6 - - + +
188C GLU* 4.0 11.7 + - - +
189C LEU 3.3 4.5 - - - +
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Residues in contact with LEU 176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134C LEU* 3.7 28.3 - - + -
136C PHE* 4.1 14.8 - - + -
137C GLY* 4.3 3.4 - - - -
138C LYS 3.3 21.5 - - - +
139C LEU* 4.3 9.0 - - + +
174C VAL* 6.4 0.2 - - + -
175C ARG* 1.3 73.6 - - - +
177C ALA* 1.3 59.4 + - - +
179C LEU* 4.0 31.5 - - + +
187C LEU 4.1 1.4 - - - +
188C GLU* 3.2 2.9 - - - -
189C LEU* 2.8 50.4 + - + +
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Residues in contact with ALA 177 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137C GLY* 3.3 6.8 - - - -
138C LYS* 2.8 40.6 + - + +
175C ARG* 4.1 1.1 - - + -
176C LEU* 1.3 75.2 - - - +
178C GLY* 1.3 62.3 + - - +
179C LEU* 3.5 3.1 - - - +
187C LEU 4.1 0.2 - - - -
188C GLU* 3.7 30.7 - - + +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il